Sandefur Conner I, Mincheva Maya, Schnell Santiago
Cystic Fibrosis and Pulmonary Diseases Research and Treatment Center and Department of Pharmacology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Mol Biosyst. 2013 Sep;9(9):2189-200. doi: 10.1039/c3mb70052f.
Systems biologists increasingly use network representations to investigate biochemical pathways and their dynamic behaviours. In this critical review, we discuss four commonly used network representations of chemical and biochemical pathways. We illustrate how some of these representations reduce network complexity but result in the ambiguous representation of biochemical pathways. We also examine the current theoretical approaches available to investigate the dynamic behaviour of chemical and biochemical networks. Finally, we describe how the critical chemical and biochemical pathways responsible for emergent dynamic behaviour can be identified using network mining and functional mapping approaches.
系统生物学家越来越多地使用网络表示法来研究生化途径及其动态行为。在这篇批判性综述中，我们讨论了化学和生化途径的四种常用网络表示法。我们说明了其中一些表示法如何降低网络复杂性，但却导致生化途径表示不明确。我们还研究了目前可用于研究化学和生化网络动态行为的理论方法。最后，我们描述了如何使用网络挖掘和功能映射方法来识别导致涌现动态行为的关键化学和生化途径。
